Multi-omics analysis report

Analysis summary

Integration model: iCluster
Dependent variable: PHF1
Sense check variable: PHF1
Clinical covariates: PHF1, amyloid, pTau, AD, Braak
Correlation threshold: 0.4
Disease ID (Open target database): MONDO_0004975 Chosen clusters: C2-C1 Enrichment database: Reactome_2016

Integration overview

Model

Number of multi-omics clusters: 2

Cluster demographics

table1::table1(~. | cluster, data=metadata[,c(covariates,"cluster")])
C1
(N=12)		 C2
(N=12)		 Overall
(N=24)
PHF1
Mean (SD) 0.521 (0.877) 1.59 (1.18) 1.08 (1.16)
Median [Min, Max] 0.0180 [0.000519, 2.66] 1.74 [0.00114, 3.57] 0.502 [0.000519, 3.57]
Missing 1 (8.3%) 0 (0%) 1 (4.2%)
diagnosis
Control 3 (25.0%) 4 (33.3%) 7 (29.2%)
AD 9 (75.0%) 8 (66.7%) 17 (70.8%)

Correlation heatmap

Weights distribution

Weights here represent the posterior probability of features in the multi-omics clustering model

Transcriptomics

Proteomics

Differentially up-regulated features

Transcriptomics

Proteomics

Differentially down-regulated features

Transcriptomics

Proteomics

Differentially expressed features plots

Transcriptomics

Proteomics

Multi-omics heatmap

Transcriptomics

Proteomics

Multi-omics network

Up regulated features

Down regulated features

Interactive visualisation

Up regulated features

Down regulated features

Multi-omics modules (eigenvalue)

Cell type enrichment

Positive weights

## $`1`

## 
## $`2`

## 
## $`3`

Negative weights

## $`1`

## 
## $`2`

Functional enrichment

Positive weights

## $`1`

## 
## $`2`

## 
## $`3`

Negative weights

## $`1`

## 
## $`2`

Transcription Factor enrichment

Positive weights

## A <3 x 1> GeneOverlapMatrix object
## Geneset A sizes:
## ME1 ME2 ME3 
## 134 106  93 
## Geneset B sizes:
## ZNF207 
##    292
##        ZNF207
## ME1 0.0000000
## ME2 0.4728693
## ME3 0.5401699

Negative weights

##        ZNF207
## ME1 1.0090427
## ME2 0.5470847

Open Targets (Positive weights)

Transcriptomics

Proteomics

Open Targets (Negative weights)

Transcriptomics

Proteomics


Omix v1.0.0 – 2023-06-12 14:45:01

 

A report by Omix